Literature DB >> 31325945

Reducing bias in the analysis of solution-state NMR data with dynamics detectors.

Albert A Smith1, Matthias Ernst1, Beat H Meier1, Fabien Ferrage2.   

Abstract

Nuclear magnetic resonance (NMR) is sensitive to dynamics on a wide range of correlation times. Recently, we have shown that analysis of relaxation rates via fitting to a correlation function with a small number of exponential terms could yield a biased characterization of molecular motion in solid-state NMR due to limited sensitivity of experimental data to certain ranges of correlation times. We introduced an alternative approach based on "detectors" in solid-state NMR, for which detector responses characterize motion for a range of correlation times and reduce potential bias resulting from the use of simple models for the motional correlation functions. Here, we show that similar bias can occur in the analysis of solution-state NMR relaxation data. We have thus adapted the detector approach to solution-state NMR, specifically separating overall tumbling motion from internal motions and accounting for contributions of chemical exchange to transverse relaxation. We demonstrate that internal protein motions can be described with detectors when the overall motion and the internal motions are statistically independent. We illustrate the detector analysis on ubiquitin with typical relaxation data sets recorded at a single high magnetic field or at multiple high magnetic fields and compare with results of model-free analysis. We also compare our methodology to LeMaster's method of dynamics analysis.

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Year:  2019        PMID: 31325945     DOI: 10.1063/1.5111081

Source DB:  PubMed          Journal:  J Chem Phys        ISSN: 0021-9606            Impact factor:   3.488


  6 in total

Review 1.  Relaxing with liquids and solids - A perspective on biomolecular dynamics.

Authors:  Paul Schanda
Journal:  J Magn Reson       Date:  2019-07-11       Impact factor: 2.229

2.  Structural Dynamics by NMR in the Solid State: The Unified MOMD Perspective Applied to Organic Frameworks with Interlocked Molecules.

Authors:  Eva Meirovitch; Zhichun Liang; Jack H Freed
Journal:  J Phys Chem B       Date:  2020-07-14       Impact factor: 2.991

3.  Molecular Dynamics-Assisted Optimization of Protein NMR Relaxation Analysis.

Authors:  Janet S Anderson; Griselda Hernández; David M LeMaster
Journal:  J Chem Theory Comput       Date:  2022-03-04       Impact factor: 6.006

4.  Structural Dynamics by NMR in the Solid State: II. The MOMD Perspective of the Dynamic Structure of Metal-Organic Frameworks Comprising Several Mobile Components.

Authors:  Eva Meirovitch; Zhichun Liang; Robert W Schurko; Stephen J Loeb; Jack H Freed
Journal:  J Phys Chem B       Date:  2022-03-25       Impact factor: 3.466

5.  A method to construct the dynamic landscape of a bio-membrane with experiment and simulation.

Authors:  Albert A Smith; Alexander Vogel; Oskar Engberg; Peter W Hildebrand; Daniel Huster
Journal:  Nat Commun       Date:  2022-01-10       Impact factor: 17.694

6.  Dynamics in natural and designed elastins and their relation to elastic fiber structure and recoil.

Authors:  Ma Faye Charmagne A Carvajal; Jonathan M Preston; Nour M Jamhawi; T Michael Sabo; Shibani Bhattacharya; James M Aramini; Richard J Wittebort; Ronald L Koder
Journal:  Biophys J       Date:  2021-07-31       Impact factor: 3.699

  6 in total

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